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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ), 'gf_id' => 'HOM05D001134', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001134' ), 'data_identifier' => 'HOM05D001134', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001134', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '544', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p38730' => 'bna', 'A06p39470' => 'bna', 'A06p44330' => 'bna', 'Aa31LG11G9480' => 'aar', 'Aa31LG3G14190' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1602' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.1613' => 'aag', 'Actinidia19779' => 'ach', 'Actinidia20516' => 'ach', 'Actinidia26655' => 'ach', 'Actinidia32486' => 'ach', 'Ah.01g008350' => 'amhyb', 'Ah.01g023060' => 'amhyb', 'Ah.06g189810' => 'amhyb', 'Ah.08g213500' => 'amhyb', 'AL6G39220' => 'aly', 'AL8G19890' => 'aly', 'Aqoxy2G01705' => 'aox', 'Aqoxy2G02814' => 'aox', 'Aqoxy2G02970' => 'aox', 'Aqoxy501s001' => 'aox', 'Aqoxy5G02920' => 'aox', 'Aqoxy6G02127' => 'aox', 'Aqoxy7G03771' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09ZXWH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.10V25C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.653B24' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.72Y1KB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B2B9U5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7P91P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FNRX56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GZ339Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE2B7Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HETY6C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K44MMV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L4XK4S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N44J0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NKEM9Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P5I184' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PJ3DXF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QJ9WGP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5MFL1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3D6FW' => 'arhy', 'AT5G27730' => 'ath', 'AT5G47900' => 'ath', 'ATR0006G087' => 'atr', 'ATR0304G055' => 'atr', 'ATR0304G061' => 'atr', 'ATR0582G104' => 'atr', 'ATR0706G073' => 'atr', 'ATR0796G201' => 'atr', 'Atru.chr2.34' => 'acertr', 'Atru.chr2.35' => 'acertr', 'Atru.chr8.1766' => 'acertr', 'AUR62000759' => 'cqu', 'AUR62005209' => 'cqu', 'AUR62008748' => 'cqu', 'AUR62010037' => 'cqu', 'AUR62013025' => 'cqu', 'AUR62025490' => 'cqu', 'BcaB07g34199' => 'bca', 'BcaC03g17799' => 'bca', 'BcaC06g30837' => 'bca', 'BolC2t11891H' => 'bol', 'BolC7t44399H' => 'bol', 'BraA02t08850Z' => 'bra', 'BraA06t26862Z' => 'bra', 'BraA06t27307Z' => 'bra', 'C02p58250' => 'bna', 'C07p38800' => 'bna', 'CAN.G1041.33' => 'can', 'CAN.G1209.20' => 'can', 'CAN.G1459.14' => 'can', 'CAN.G222.147' => 'can', 'CAN.G38.11' => 'can', 'CAN.G434.3' => 'can', 'CAN.G624.15' => 'can', 'CAN.G900.17' => 'can', 'CANSAT01G2962' => 'cansat', 'CANSAT25G0602' => 'cansat', 'CANSAT25G1933' => 'cansat', 'CANSAT54G2862' => 'cansat', 'CANSAT80G2012' => 'cansat', 'CARHR186250' => 'chi', 'CARHR284320' => 'chi', 'Carub.0006s2483' => 'cru', 'Carub.0014s0004' => 'cru', 'Ca_04083_v3' => 'car', 'Ca_05797_v3' => 'car', 'Ca_08891_v3' => 'car', 'Ca_08915_v3' => 'car', 'Ca_10305_v3' => 'car', 'Ca_14288_v3' => 'car', 'Ca_15298_v3' => 'car', 'Ca_30642_v3' => 'car', 'Cc02_g34170' => 'ccan', 'Cc03_g12600' => 'ccan', 'Cc06_g04420' => 'ccan', 'Cc07_g15240' => 'ccan', 'Cc09_g10230' => 'ccan', 'CDE02G2567' => 'cde', 'CDE05G3551' => 'cde', 'CDE09G0188' => 'cde', 'CDE09G0825' => 'cde', 'Cfa003845' => 'cfa', 'Cfa005252' => 'cfa', 'Cfa005847' => 'cfa', 'Cfa009480' => 'cfa', 'Cfa017637' => 'cfa', 'Ciclev10001045m.g' => 'ccl', 'Ciclev10011557m.g' => 'ccl', 'Ciclev10028441m.g' => 'ccl', 'CiPaw.05G082800' => 'cil', 'CiPaw.05G097100' => 'cil', 'CiPaw.06G112000' => 'cil', 'CiPaw.06G121500' => 'cil', 'CiPaw.07G021700' => 'cil', 'CiPaw.07G114600' => 'cil', 'CiPaw.10G128500' => 'cil', 'ClCG02G011970' => 'cla', 'ClCG02G015280' => 'cla', 'ClCG10G013140' => 'cla', 'ClCG10G019980' => 'cla', 'COL.COLO4_10523' => 'col', 'COL.COLO4_12146' => 'col', 'COL.COLO4_23272' => 'col', 'COL.COLO4_26931' => 'col', 'Cpa.g.sc151.56' => 'cpa', 'Cpa.g.sc327.1' => 'cpa', 'Cpa.g.sc38.18' => 'cpa', 'Cpa.g.sc92.103' => 'cpa', 'CsaV3_2G006730' => 'csa', 'CsaV3_2G016140' => 'csa', 'CsaV3_3G036110' => 'csa', 'CsaV3_3G043450' => 'csa', 'CSS0001164' => 'camsi', 'CSS0008292' => 'camsi', 'CSS0018259' => 'camsi', 'CSS0031747' => 'camsi', 'CSS0033963' => 'camsi', 'CSS0037008' => 'camsi', 'CSS0042529' => 'camsi', 'CSS0043458' => 'camsi', 'DCAR_015007' => 'dca', 'DCAR_017668' => 'dca', 'DCAR_018307' => 'dca', 'DCAR_022144' => 'dca', 'Dinv10061' => 'din', 'Dinv11747' => 'din', 'Dinv14113' => 'din', 'Dinv30812' => 'din', 'Dinv35805' => 'din', 'Duzib093G1187' => 'dzi', 'Duzib147G1286' => 'dzi', 'Duzib177G0837' => 'dzi', 'Duzib211G0495' => 'dzi', 'ECA236G2390' => 'eca', 'ECA246G1019' => 'eca', 'ECA247G1627' => 'eca', 'EL10Ac4g09911' => 'bvu', 'EL10Ac7g17617' => 'bvu', 'EL10Ac9g21371' => 'bvu', 'Eucgr.H04535' => 'egr', 'Eucgr.I01428' => 'egr', 'Eucgr.J01676' => 'egr', 'Eucgr.K02443' => 'egr', 'Eucgr.K03521' => 'egr', 'FAN02G0420' => 'fan', 'FAN04G2494' => 'fan', 'FAN05G0581' => 'fan', 'FAN05G1286' => 'fan', 'FAN05G2751' => 'fan', 'FAN07G2984' => 'fan', 'FAN08G1535' => 'fan', 'FAN09G2204' => 'fan', 'FAN09G3683' => 'fan', 'FAN12G3272' => 'fan', 'FAN14G0015' => 'fan', 'FAN14G1274' => 'fan', 'FAN15G1140' => 'fan', 'FAN17G2172' => 'fan', 'FAN18G4364' => 'fan', 'FAN20G2206' => 'fan', 'FAN24G2518' => 'fan', 'FvH4_2g01080' => 'fve', 'FvH4_4g22060' => 'fve', 'FvH4_5g39640' => 'fve', 'FvH4_6g06580' => 'fve', 'FvH4_6g16610' => 'fve', 'Glyma.02G014666' => 'gma', 'Glyma.03G184900' => 'gma', 'Glyma.03G235250' => 'gma', 'Glyma.06G003300' => 'gma', 'Glyma.08G363600' => 'gma', 'Glyma.10G015300' => 'gma', 'Glyma.10G058701' => 'gma', 'Glyma.13G145500' => 'gma', 'Glyma.14G163500' => 'gma', 'Glyma.18G298500' => 'gma', 'Glyma.19G185401' => 'gma', 'Glyma.19G233000' => 'gma', 'Gohir.A01G142200' => 'ghi', 'Gohir.A05G372900' => 'ghi', 'Gohir.A09G145050' => 'ghi', 'Gohir.A11G268100' => 'ghi', 'Gohir.A12G127100' => 'ghi', 'Gohir.D01G130300' => 'ghi', 'Gohir.D04G042600' => 'ghi', 'Gohir.D09G141000' => 'ghi', 'Gohir.D11G278000' => 'ghi', 'Gohir.D12G130500' => 'ghi', 'Gorai.002G161600' => 'gra', 'Gorai.006G161700' => 'gra', 'Gorai.007G300200' => 'gra', 'Gorai.008G141800' => 'gra', 'Gorai.012G048100' => 'gra', 'Gorai.N011600' => 'gra', 'GSVIVG01001132001' => 'vvi', 'GSVIVG01031138001' => 'vvi', 'GSVIVG01033665001' => 'vvi', 'HanXRQChr03g0074711' => 'han', 'HanXRQChr06g0184411' => 'han', 'HanXRQChr14g0430011' => 'han', 'HanXRQChr14g0430021' => 'han', 'HanXRQChr15g0464221' => 'han', 'HanXRQChr15g0478001' => 'han', 'Haze_02131' => 'cav', 'Haze_04137' => 'cav', 'Haze_05002' => 'cav', 'Haze_12538' => 'cav', 'Haze_15605' => 'cav', 'Haze_20515' => 'cav', 'Hma1.2p1_0212F.1_g090140' => 'hma', 'Hma1.2p1_0346F.1_g131470' => 'hma', 'Hma1.2p1_0564F.1_g179330' => 'hma', 'Hma1.2p1_0738F.1_g211060' => 'hma', 'Hma1.2p1_0828F.1_g225190' => 'hma', 'Hma1.2p1_1292F.1_g273775' => 'hma', 'Hma1.2p1_1292F.1_g273790' => 'hma', 'HPP92_006436' => 'vpl', 'HPP92_009746' => 'vpl', 'HPP92_009767' => 'vpl', 'HPP92_013718' => 'vpl', 'HPP92_018263' => 'vpl', 'HPP92_023734' => 'vpl', 'HPP92_023737' => 'vpl', 'HPP92_025901' => 'vpl', 'HPP92_025907' => 'vpl', 'HPP92_025912' => 'vpl', 'Hund00018' => 'sun', 'Hund05462' => 'sun', 'Hund06439' => 'sun', 'Hund07100' => 'sun', 'Lalb_Chr04g0257331' => 'lal', 'Lalb_Chr06g0164731' => 'lal', 'Lalb_Chr10g0091141' => 'lal', 'Lalb_Chr15g0077381' => 'lal', 'Lalb_Chr15g0077391' => 'lal', 'Lalb_Chr17g0335711' => 'lal', 'Lalb_Chr21g0309441' => 'lal', 'Lalb_Chr23g0264981' => 'lal', 'Lj1A20T47' => 'lonja', 'Lj1A693T57' => 'lonja', 'Lj1E20T2' => 'lonja', 'Lj1g0012731' => 'lja', 'Lj1g0023064' => 'lja', 'Lj1g0024412' => 'lja', 'Lj1g0026911' => 'lja', 'Lj2C119T4' => 'lonja', 'Lj3C989T13' => 'lonja', 'Lj5A403T6' => 'lonja', 'Lj5A408T6' => 'lonja', 'Lj5A410T5' => 'lonja', 'Lj5C399T0' => 'lonja', 'Lj5g0001315' => 'lja', 'Lj5g0008377' => 'lja', 'Lsat_1_v5_gn_2_30841' => 'lsa', 'Lsat_1_v5_gn_2_75840' => 'lsa', 'Lsat_1_v5_gn_3_47700' => 'lsa', 'Lsat_1_v5_gn_5_3741' => 'lsa', 'Lsat_1_v5_gn_7_54900' => 'lsa', 'Lsat_1_v5_gn_8_166381' => 'lsa', 'Manes.05G001400' => 'mes', 'Manes.08G098800' => 'mes', 'Manes.08G117300' => 'mes', 'Manes.09G064400' => 'mes', 'Manes.11G096500' => 'mes', 'Mapoly0245s0003' => 'mpo', 'MBI07_g11068_MAGBIO' => 'mbi', 'MBI11_g22239_MAGBIO' => 'mbi', 'MBI16_g13214_MAGBIO' => 'mbi', 'MBI18_g17026_MAGBIO' => 'mbi', 'MBI18_g24954_MAGBIO' => 'mbi', 'MBI18_g39593_MAGBIO' => 'mbi', 'MD03G1297600' => 'mdo', 'MD04G1090600' => 'mdo', 'MD04G1200000' => 'mdo', 'MD05G1122500' => 'mdo', 'MD11G1189400' => 'mdo', 'MD13G1134700' => 'mdo', 'MD16G1130600' => 'mdo', 'Medtr1g062970' => 'mtr', 'Medtr1g087750' => 'mtr', 'Medtr3g117990' => 'mtr', 'Medtr7g102840' => 'mtr', 'Medtr7g102870' => 'mtr', 'Medtr7g112720' => 'mtr', 'Medtr7g406830' => 'mtr', 'Medtr7g406840' => 'mtr', 'MELO3C004217.2' => 'cme', 'MELO3C009371.2' => 'cme', 'MELO3C020823.2' => 'cme', 'MELO3C026757.2' => 'cme', 'MELO3C029171.2' => 'cme', 'MELO3C034443.2' => 'cme', 'MELO3C035591.2' => 'cme', 'MELO3C035592.2' => 'cme', 'Migut.B00072' => 'egut', 'Migut.D00105' => 'egut', 'Migut.H01172' => 'egut', 'Migut.J00641' => 'egut', 'Migut.K01150' => 'egut', 'MSTRG.19986' => 'ama', 'MSTRG.437' => 'ama', 'MSTRG.8071' => 'ama', 'Nitab4.5_0000274g0050' => 'nta', 'Nitab4.5_0000283g0430' => 'nta', 'Nitab4.5_0002113g0030' => 'nta', 'Nitab4.5_0003658g0100' => 'nta', 'Nitab4.5_0003844g0070' => 'nta', 'Nitab4.5_0003914g0070' => 'nta', 'Nitab4.5_0004195g0030' => 'nta', 'Nitab4.5_0005019g0050' => 'nta', 'Nitab4.5_0005236g0050' => 'nta', 'Nitab4.5_0005286g0110' => 'nta', 'Nitab4.5_0006939g0020' => 'nta', 'Nitab4.5_0007602g0020' => 'nta', 'Nitab4.5_0008750g0040' => 'nta', 'Nitab4.5_0018006g0010' => 'nta', 'Nn3g21619' => 'nnu', 'Nn4g22046' => 'nnu', 'Nn4g25818' => 'nnu', 'Nn5g30802' => 'nnu', 'Nn6g35252' => 'nnu', 'Oeu005034.1' => 'oeu', 'Oeu006464.1' => 'oeu', 'Oeu006465.1' => 'oeu', 'Oeu010271.1' => 'oeu', 'Oeu011724.1' => 'oeu', 'Oeu015372.1' => 'oeu', 'Oeu017260.1' => 'oeu', 'Oeu022413.1' => 'oeu', 'Oeu029133.1' => 'oeu', 'Oeu041484.1' => 'oeu', 'Oeu054850.1' => 'oeu', 'Os02g0526000' => 'osa', 'Os04g0404900' => 'osa', 'Os05g0155700' => 'osa', 'Os11g0543500' => 'osa', 'Peaxi162Scf00037g01225' => 'pax', 'Peaxi162Scf00042g02413' => 'pax', 'Peaxi162Scf00140g01352' => 'pax', 'Peaxi162Scf00362g00554' => 'pax', 'Peaxi162Scf00362g00555' => 'pax', 'Peaxi162Scf00722g00419' => 'pax', 'Peaxi162Scf01167g00122' => 'pax', 'Peaxi162Scf63023g00004' => 'pax', 'PGR031G0417' => 'pgr', 'PGR042G2942' => 'pgr', 'PGR119G0570' => 'pgr', 'PGR142G3044' => 'pgr', 'PGR142G4439' => 'pgr', 'PGSC0003DMG400002183' => 'stu', 'PGSC0003DMG400003894' => 'stu', 'PGSC0003DMG400007540' => 'stu', 'PGSC0003DMG400024713' => 'stu', 'PGSC0003DMG400041580' => 'stu', 'PGSC0003DMG402024038' => 'stu', 'Phvul.001G180300' => 'pvu', 'Phvul.006G089300' => 'pvu', 'Phvul.007G150900' => 'pvu', 'Phvul.007G216500' => 'pvu', 'Phvul.008G004100' => 'pvu', 'Phvul.009G119000' => 'pvu', 'Potri.001G071500' => 'ptr', 'Potri.003G159200' => 'ptr', 'Potri.004G176400' => 'ptr', 'Potri.005G025200' => 'ptr', 'Potri.006G122500' => 'ptr', 'Potri.009G136700' => 'ptr', 'Potri.013G016900' => 'ptr', 'Potri.014G123800' => 'ptr', 'Pp3c14_3250' => 'ppa', 'Pp3c1_27830' => 'ppa', 'Prupe.1G210600' => 'ppe', 'Prupe.6G320400' => 'ppe', 'Prupe.7G127200' => 'ppe', 'Prupe.8G166300' => 'ppe', 'Prupe.8G269300' => 'ppe', 'Psat0s1830g0200' => 'psa', 'Psat3g041320' => 'psa', 'Psat3g041360' => 'psa', 'Psat3g206560' => 'psa', 'Psat5g001320' => 'psa', 'Psat6g162880' => 'psa', 'PSO017G6079' => 'pso', 'PSO210G4721' => 'pso', 'PSO339G2725' => 'pso', 'PSO478G4065' => 'pso', 'PSO541G6481' => 'pso', 'PSO566G0051' => 'pso', 'PSO675G7894' => 'pso', 'PSO729G0030' => 'pso', 'PSO761G0655' => 'pso', 'PSO782G0250' => 'pso', 'PSO782G1476' => 'pso', 'PSO782G1519' => 'pso', 'PSO782G2224' => 'pso', 'PSO801G0537' => 'pso', 'PSO832G0123' => 'pso', 'PSO832G0775' => 'pso', 'PSO832G1641' => 'pso', 'PSO832G3001' => 'pso', 'QL03p020163' => 'qlo', 'QL03p047973' => 'qlo', 'QL07p042835' => 'qlo', 'QL11p050807' => 'qlo', 'QL12p027193' => 'qlo', 'QL12p028903' => 'qlo', 'QL93p2024_0036' => 'qlo', 'RcHm_v2.0_Chr1g0327391' => 'rch', 'RcHm_v2.0_Chr3g0455771' => 'rch', 'RcHm_v2.0_Chr3g0470581' => 'rch', 'RcHm_v2.0_Chr4g0428311' => 'rch', 'RcHm_v2.0_Chr6g0248311' => 'rch', 'RcHm_v2.0_Chr6g0251551' => 'rch', 'RcHm_v2.0_Chr7g0241951' => 'rch', 'Rhsim05G0138700' => 'rsi', 'Rhsim11G0189000' => 'rsi', 'Rhsim11G0192600' => 'rsi', 'Rhsim13G0006700' => 'rsi', 'Sabra01G0050300' => 'sbr', 'Sabra03G0115600' => 'sbr', 'Sabra04G0118500' => 'sbr', 'Sabra05G0030800' => 'sbr', 'Sabra09G0106200' => 'sbr', 'Sabra13G0015600' => 'sbr', 'Sabra13G0019800' => 'sbr', 'Sabra14G0092100' => 'sbr', 'SalBow2G2256' => 'sbo', 'SalBow3G2117' => 'sbo', 'SalBow3G4379' => 'sbo', 'SalBow7G4110' => 'sbo', 'Sc05g0003260' => 'sci', 'Sc06g0004120' => 'sci', 'Sc08g0002860' => 'sci', 'Sc18g0006420' => 'sci', 'Sed0001404' => 'sed', 'Sed0008252' => 'sed', 'Sed0011371' => 'sed', 'Sed0011869' => 'sed', 'Sed0025960' => 'sed', 'SEGI_10266' => 'sgi', 'SEGI_11379' => 'sgi', 'SEGI_14843' => 'sgi', 'SEGI_21843' => 'sgi', 'SEGI_22508' => 'sgi', 'SEGI_25202' => 'sgi', 'SEGI_28012' => 'sgi', 'SGA_v2.0_scaffold258G45759' => 'sas', 'SGA_v2.0_scaffold376G50263' => 'sas', 'SGA_v2.0_scaffold40G15478' => 'sas', 'SGA_v2.0_scaffold58G20363' => 'sas', 'SMO199G0107' => 'smo', 'SMO361G0303' => 'smo', 'SMO361G0729' => 'smo', 'SMO367G0785' => 'smo', 'Solyc01g099750.2' => 'sly', 'Solyc06g084590.4' => 'sly', 'Solyc09g008360.2' => 'sly', 'Solyc10g055593.1' => 'sly', 'Solyc10g055620.2' => 'sly', 'Solyc11g040150.2' => 'sly', 'Sopen01g043270' => 'spe', 'Sopen06g035960' => 'spe', 'Sopen09g003180' => 'spe', 'Sopen10g025360' => 'spe', 'Sopen10g025410' => 'spe', 'Sopen11g017360' => 'spe', 'Sp2g18400' => 'spa', 'Sp2g20900' => 'spa', 'TAR362G1229' => 'tar', 'TAR365G0694' => 'tar', 'TAR374G1387' => 'tar', 'TAR622G0434' => 'tar', 'TAR628G1189' => 'tar', 'TAR636G2822' => 'tar', 'THA.LOC104801576' => 'tha', 'THA.LOC104801581' => 'tha', 'THA.LOC104818720' => 'tha', 'Thecc.01G144900' => 'tca', 'Thecc.01G309300' => 'tca', 'Thecc.05G069700' => 'tca', 'Thecc.05G069800' => 'tca', 'Thecc.05G313200' => 'tca', 'Thhalv10004241m.g' => 'esa', 'Thhalv10004288m.g' => 'esa', 'TPR.G19771' => 'tpr', 'TPR.G21006' => 'tpr', 'TPR.G21323' => 'tpr', 'TPR.G29182' => 'tpr', 'TPR.G32817' => 'tpr', 'TPR.G32839' => 'tpr', 'TPR.G33195' => 'tpr', 'TPR.G34380' => 'tpr', 'TPR.G38505' => 'tpr', 'TPR.G39848' => 'tpr', 'TPR.G9696' => 'tpr', 'TWI12G1371' => 'twi', 'TWI18G0743' => 'twi', 'TWI36G1580' => 'twi', 'TWI74G0283' => 'twi', 'TWI75G0159' => 'twi', 'unitig_21.g20836' => 'ugi', 'unitig_699.g19673' => 'ugi', 'unitig_749.g13335' => 'ugi', 'vmacro02280' => 'vma', 'vmacro02418' => 'vma', 'vmacro19745' => 'vma', 'VMungo0540G1096' => 'vmu', 'VMungo0720G0107' => 'vmu', 'VMungo0720G1911' => 'vmu', 'VMungo1309G0786' => 'vmu', 'VMungo1358G0001' => 'vmu', 'VMungo1383G1085' => 'vmu', 'VMungo1383G1865' => 'vmu', 'Zm00001eb084430' => 'zma', 'Zm00001eb168200' => 'zma', 'Zm00001eb183800' => 'zma', 'Zm00001eb242410' => 'zma', 'Zm00001eb288530' => 'zma', 'Zm00001eb346140' => 'zma', 'Zm00001eb363610' => 'zma', 'Zm00001eb421720' => 'zma' ) $gf_id = 'HOM05D001134' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001134' ) $data_identifier = 'HOM05D001134' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 2, 'aag' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 4, 'aly' => (int) 2, 'aox' => (int) 7, 'arhy' => (int) 19, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 3, 'bol' => (int) 2, 'bra' => (int) 3, 'can' => (int) 8, 'cansat' => (int) 5, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 8, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 3, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 5, 'gma' => (int) 12, 'ghi' => (int) 10, 'gra' => (int) 6, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 6, 'hma' => (int) 7, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 8, 'lonja' => (int) 9, 'lja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 8, 'egut' => (int) 5, 'ama' => (int) 3, 'nta' => (int) 14, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 5, 'psa' => (int) 6, 'pso' => (int) 18, 'qlo' => (int) 7, 'rch' => (int) 7, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 4, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 2, 'tar' => (int) 6, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 2, 'tpr' => (int) 11, 'twi' => (int) 5, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 7, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421720' $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